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PDB entry 3dqb

Crystal structure of the active G-protein-coupled receptor opsin in complex with a C-terminal peptide derived from the Galpha subunit of transducin

The structure was published by Scheerer, P., Park, J.H., Hildebrand, P.W., et al., Choe, H.-W., Hofmann, K.P., and Ernst, O.P., in 2008 in a paper entitled "Crystal structure of opsin in its G-protein-interacting conformation" (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 3.2 Å and deposited in 2008.

The experimental data on which the structure is based was also deposited.

This PDB entry contains a complex of 2 biomacromolecules, namely Rhodopsin and 11meric peptide form Guanine nucleotide-binding protein G(t) subunit alpha-1.

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule has more than one probable quaternary state observed. For more details see the quaternary structure page.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):

Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A Rhodopsin P02699 (1-348) (OPSD_BOVIN)search Bos taurussearch 99% 348 93%
B 11meric peptide form Guanine nucleotide-binding protein G(t) subunit alpha-1 P04695 (342-350) (GNAT1_BOVIN)search Bos taurussearch 93% 11 100%

This entry contains 2 unique UniProt proteins:

UniProt accession Name Organism PDB
P02699 (1 - 348) Rhodopsin Bos taurus
P04695 (342 - 350) 11meric peptide form Guanine nucleotide-binding protein G(t) subunit alpha-1

Chain Structural classification (CATH) Sequence family (Pfam)
A (P02699) Rhopdopsin 7-helix transmembrane proteinssearch Amino terminal of the G-protein receptor rhodopsinsearch, 7 transmembrane receptor (rhodopsin family)search
B (P04695) G-protein alpha subunitsearch

Chain ID Cellular component (GO) Molecular function (GO) Biological process (GO)
A (P02699) Photoreceptor outer segmentsearch, Photoreceptor inner segmentsearch, Golgi apparatussearch, Plasma membranesearch, Membranesearch, Integral to membranesearch, Photoreceptor outer segment membranesearch, Photoreceptor inner segment membranesearch Signal transducer activitysearch, Receptor activitysearch, G-protein coupled receptor activitysearch, Protein bindingsearch, Photoreceptor activitysearch, Metal ion bindingsearch Protein phosphorylationsearch, Signal transductionsearch, G-protein coupled receptor signaling pathwaysearch, Visual perceptionsearch, Phototransductionsearch, Response to light stimulussearch, Detection of light stimulussearch, Protein-chromophore linkagesearch, Response to stimulussearch, Sensory perception of light stimulussearch, Retina development in camera-type eyesearch, Cellular response to light stimulussearch
B (P04695) Photoreceptor outer segmentsearch, Photoreceptor inner segmentsearch, Heterotrimeric g-protein complexsearch, Extrinsic to internal side of plasma membranesearch, Photoreceptor connecting ciliumsearch, Photoreceptor outer segment membranesearch Acyl bindingsearch, Nucleotide bindingsearch, G-protein coupled receptor bindingsearch, Gtpase activitysearch, Signal transducer activitysearch, Gtp bindingsearch, Gdp bindingsearch, Protein kinase bindingsearch, G-protein beta/gamma-subunit complex bindingsearch Detection of chemical stimulus involved in sensory perception of bitter tastesearch, Gtp catabolic processsearch, Signal transductionsearch, G-protein coupled receptor signaling pathwaysearch, G-protein signaling, coupled to camp nucleotide second messengersearch, Visual perceptionsearch, Phototransductionsearch, Phototransduction, visible lightsearch, Cell proliferationsearch, Response to light stimulussearch, Rhodopsin mediated phototransductionsearch, Eye photoreceptor cell developmentsearch, Response to stimulussearch, Detection of light stimulus involved in visual perceptionsearch, Sensory perception of umami tastesearch, Negative regulation of cyclic-nucleotide phosphodiesterase activitysearch, Retina development in camera-type eyesearch, Cellular response to electrical stimulussearch

Chain InterPro annotation
A GPCR, rhodopsin-like, 7TMsearch, Rhodopsinsearch, Opsinsearch, GPCR, rhodopsin-like superfamilysearch, Rhodopsin, N-terminalsearch
B Guanine nucleotide binding protein (G-protein), alpha subunitsearch, G-protein alpha subunit, group Isearch, G protein alpha subunit, helical insertionsearch